The CCN clearinghouse provides a synthesized and curated set of coastal carbon data that promotes the sharing of open data, novel analyses, and collaboration opportunities. The synthesis is created by curating and merging publicly available data through an automated script. This report documents the success or failure of the automated synthesis process, documents changes, conducts QA/QC tests, and provides visualizations and summaries of data within the clearinghouse.
Report date: 2024/03/05-11:56
Synthesis status: Successful
Contact: Jaxine Wolfe (wolfejax@si.edu)
Database Overview
Currently, this synthesis contains 502 studies with soil carbon associated observations across 3901 sites and 13475 cores from around the world. Observations represent a 62 year timespan, from 1960 to 2022.
Cases where a core ID is present in the core-level table but not the depthseries.
Cases where a core ID is present in the depthseries table but not the core-level table.
The studies with uncontrolled attributes in essential tables are the following:
Belshe_et_al_2019, Breithaupt_et_al_2014, Callaway_et_al_2019, Darienzo_and_Peterson_1990, Everhart_et_al_2020, Morrissette_et_al_2023, Radabaugh_et_al_2021
This table provides a more detailed breakdown of these attributes and the values associated with them:
COMING SOON
Summary Statistics:
## [1] "The following studies do not have citation information present."
## [1] "Stahl_et_al_2024" "Palinkas_and_Engelhardt_2024" "Palinkas_and_Cornwell_2024"
## [4] "Marot_et_al_2020" "Drake_et_al_2024" "Craft_2024"
Habitat Assignments
| habitat | n | pct |
|---|---|---|
| marsh | 6911 | 51.28 |
| mangrove | 4484 | 33.27 |
| seagrass | 940 | 6.97 |
| unvegetated | 644 | 4.78 |
| swamp | 216 | 1.60 |
| scrub/shrub | 111 | 0.82 |
| unknown | 100 | 0.74 |
| algal mat | 63 | 0.47 |
| upland | 8 | 0.06 |
The following table shows which cores are currently not assigned any habitat:
Geography Assignments
The following table shows which cores are currently not assigned any country. This may be because the latitude and longitude are undefined.
MORE COMING SOON
Depth Interval Checks
Instances of multiple observations for the same interval within a unique core (and unique method ID) were found in the following 32 studies:
Boyd_et_al_2017, Buffington_et_al_2020, Callaway_et_al_2019, CRMS_Database, Drexler_et_al_2009, Drexler_et_al_2013, Everhart_et_al_2020, Fourqurean_and_Kendrick_unpublished, Gerlach_et_al_2017, Gonneea_et_al_2004, Howard_and_Fourqurean_2020, Kemp_et_al_2020, Kumar_et_al_2020, Langston_et_al_2022, MacKenzie_et_al_2021, Marot_et_al_2020, Messerschmidt_and_Kirwan_2020, Nahlik_and_Fennessy_2016, NCSS, Oakes_and_Connolly_2004, Orson_1990, Paula_et_al_2001, Rigollet_et_al_2004, Schieder_and_Kirwan_2019, Smeaton_et_al_2022b, Smeaton_et_al_2023, Stahl_et_al_2024, StLaurent_et_al_2020, Trettin_et_al_2017, Van_de_Broek_et_al_2018, Wang_et_al_2023, Watson_and_Byrne_2013
There are 3207 single-interval surface samples (max depth < 20cm) and 168 single-interval subsurface samples. There are also 638 large single-interval samples (ex. one representative (?) sample for 0-100cm depth).
The following 2 studies had at least one depth interval where the depth max was less than the depth min: DelVecchia_et_al_2014, Thom_1992
Numeric Data Distributions
Relationship between organic matter (LOI) and carbon content
COMING SOON
The following table summarizes which entries across the range of synthesis tables changed compared to the previous synthesis. Study IDs associated with the “forward” change type represent data that was not present in the previous synthesis, while “backward” indicates that study ID is no longer in the given table. If a study ID in a table is associated with both backward and forward change types, it is likely that one or more values were altered for that row in the new synthesis.
The following files were found in the derivative folders. They either do not match the approved filename structure for csvs or are another filetype
## [1] "data/primary_studies/CIFOR/derivative_SWAMP/cifor_swamp_allometric_eq.csv"
## [2] "data/primary_studies/CIFOR/derivative_SWAMP/cifor_swamp_plant_plot_detail.csv"
## [3] "data/primary_studies/CIFOR/derivative_SWAMP/cifor_swamp_plant.csv"
## [4] "data/primary_studies/CIFOR/derivative_SWAMP/cifor_swamp_plot_summary.csv"
## [5] "data/primary_studies/Dontis_et_al_2020/derivative/Dontis_et_al_2020_allometric_eq.csv"
## [6] "data/primary_studies/Dontis_et_al_2020/derivative/Dontis_et_al_2020_plant.csv"
## [7] "data/primary_studies/Dontis_et_al_2020/derivative/Dontis_et_al_2020_plot_summary.csv"
## [8] "data/primary_studies/Fourqurean_2012/derivative/Fourqurean_2012_biomass.csv"
## [9] "data/primary_studies/Gillen_et_al_2018/derivative/Gillen_et_al_2018_plant_plot_detail.csv"
## [10] "data/primary_studies/Gillen_et_al_2018/derivative/Gillen_et_al_2018_plot_summary.csv"
## [11] "data/primary_studies/Morgan_et_al_2024/derivative/morgan_et_al_2024_plot_summary.csv"
## [12] "data/primary_studies/Morgan_et_al_2024/derivative/morgan_et_al_2024_site.csv"
## [13] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_allometric_eq.csv"
## [14] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_plant_plot_detail.csv"
## [15] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_plant.csv"
## [16] "data/primary_studies/Radabaugh_et_al_2017/derivative/radabaugh_et_al_2017_plot_summary.csv"
## [17] "data/primary_studies/Radabaugh_et_al_2018/derivative/radabaugh_et_al_2018_plot_summary.csv"
## [18] "data/primary_studies/Radabaugh_et_al_2023/derivative/radabaugh_et_al_2023_allometric_eq.csv"
## [19] "data/primary_studies/Radabaugh_et_al_2023/derivative/radabaugh_et_al_2023_plant.csv"
## [20] "data/primary_studies/Radabaugh_et_al_2023/derivative/radabaugh_et_al_2023_plot_summary.csv"
## [21] "data/primary_studies/Simard_et_al_2019/derivative/Simard_et_al_2019_plant_plot_detail.csv"
## [22] "data/primary_studies/Simard_et_al_2019/derivative/Simard_et_al_2019_plant.csv"
## [23] "data/primary_studies/Simard_et_al_2019/derivative/Simard_et_al_2019_plot_summary.csv"
## [24] "data/primary_studies/Trettin_et_al_2020/derivative/trettin_et_al_2020_study_citation.csv"
## [1] "data/primary_studies/Brown_et_al_2024/derivative/_readMe.txt"
## [2] "data/primary_studies/Darienzo_and_Peterson_1990/derivative/_readMe.rtf"
## [3] "data/primary_studies/Dontis_et_al_2020/derivative/_readMe.txt"
## [4] "data/primary_studies/Everhart_et_al_2020/derivative/_readMe.txt"
## [5] "data/primary_studies/Gillen_et_al_2018/derivative/_readMe.txt"
## [6] "data/primary_studies/Langston_et_al_2022/derivative/_readMe.txt"
## [7] "data/primary_studies/Messerschmidt_et_al_2020/derivative/_readMe.txt"
## [8] "data/primary_studies/Morgan_et_al_2024/derivative/_readMe.rtf"
## [9] "data/primary_studies/Radabaugh_et_al_2017/derivative/_readMe.txt"
## [10] "data/primary_studies/Radabaugh_et_al_2018/derivative/_readMe.txt"
## [11] "data/primary_studies/Radabaugh_et_al_2021/derivative/_readMe.txt"
## [12] "data/primary_studies/Radabaugh_et_al_2023/derivative/_readMe.txt"
## [13] "data/primary_studies/Simard_et_al_2019/derivative/_readMe.rtf"
## [14] "data/primary_studies/Smith_and_Kirwan_2021/derivative/_readMe.txt"
## [15] "data/primary_studies/Stevens_et_al_2024/derivative/_readMe.txt"
## [16] "data/primary_studies/Vinent_and_Kirwan_2017/derivative/_readMe.txt"
## Summary of (a total of 2) warning messages:
## 1x : [38;5;232mThere was 1 warning in `mutate()`.[39m
## [38;5;232m[36mℹ[38;5;232m In argument: `across(everything(), as.numeric)`.[39m
## Caused by warning:
## [33m![39m NAs introduced by coercion
## 1x : [38;5;232mThere was 1 warning in `dplyr::summarize()`.[39m
## [38;5;232m[36mℹ[38;5;232m In argument: `dplyr::across(tidyselect::any_of(variable_names), mangled_skimmers$funs)`.
## [36mℹ[38;5;232m In group 0: .[39m
## Caused by warning:
## [33m![39m [38;5;232mThere were 2 warnings in `dplyr::summarize()`.
## The first warning was:[39m
## [38;5;232m[36mℹ[38;5;232m In argument: `dplyr::across(tidyselect::any_of(variable_names), mangled_skimmers$funs)`.[39m
## Caused by warning in `min()`:
## [33m![39m no non-missing arguments to min; returning Inf
## [38;5;232m[36mℹ[38;5;232m Run ]8;;ide:run:dplyr::last_dplyr_warnings()dplyr::last_dplyr_warnings()]8;; to see the 1 remaining warning.[39m